Execute Steps Manually

We have provided the commands to run each single cell capture manually if your data don’t match the assumptions of the snakemake pipeline, you want to alter some parameters of you just want to understand the steps that are being executed at each step.

Importantly, all the softwares and files required to run these steps manually are still provided in the Singularity image so no additional instllation will be necessary.

To run your dataset(s) manually, procded to the Manually Execute Pipeline documentation.

Support

If you have any questions, suggestions or issues with any part of the Ancestry Prediction from scRNA-seq Data Pipeline, feel free to submit an issue or email Drew Neavin (d.neavin @ garvan.org.au)